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aidenlab / juicer

A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
http://aidenlab.org
MIT License
410 stars 181 forks source link

Still have problem with cuda installation #237

Closed Lattesnow closed 3 years ago

Lattesnow commented 3 years ago

Hi, I am using the CPU model to run my hic data. I installed the cuda and with a Nivida GPU here. But it still shows no detect the GPU with the errors showing below.

java -jar juicer_tools_1.22.01.jar hiccups -r 40000 -p 1 -i 3 -f 0.1 -d 80000 --ignore-sparsity dmsoshallowhg38new.hic dmsohiccups_40kb WARN [2021-08-25T15:32:01,774] [Globals.java:138] [main] Development mode is enabled Reading file: dmsoshallowhg38new.hic Resolution 40000 not available. No valid configurations specified, using default settings Using 1 CPU thread(s) Warning Hi-C map is too sparse to find many loops via HiCCUPS. Default settings for 5kb, 10kb, and 25kb being used Running HiCCUPS for resolution 5000 Data not available for chr6 at 5000 resolution Data not available for chr9 at 5000 resolution Data not available for chr18 at 5000 resolution Data not available for chr22 at 5000 resolution Data not available for chrX at 5000 resolution Data not available for chrY at 5000 resolution jcuda.CudaException: Failed to initialize the driver: CUDA_ERROR_NO_DEVICE at jcuda.utils.KernelLauncher.initialize(KernelLauncher.java:606) at jcuda.utils.KernelLauncher.(KernelLauncher.java:586) at jcuda.utils.KernelLauncher.create(KernelLauncher.java:393) at jcuda.utils.KernelLauncher.create(KernelLauncher.java:321) at jcuda.utils.KernelLauncher.compile(KernelLauncher.java:270) at juicebox.tools.utils.juicer.hiccups.GPUController.(GPUController.java:72) at juicebox.tools.clt.juicer.HiCCUPS.buildGPUController(HiCCUPS.java:578) at juicebox.tools.clt.juicer.HiCCUPS.runCoreCodeForHiCCUPS(HiCCUPS.java:505) at juicebox.tools.clt.juicer.HiCCUPS.access$200(HiCCUPS.java:158) at juicebox.tools.clt.juicer.HiCCUPS$1.run(HiCCUPS.java:434) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) at java.lang.Thread.run(Thread.java:745) GPU/CUDA Installation Not Detected Exiting HiCCUPS

sa501428 commented 3 years ago

Have you already tested the installation using something like this: https://github.com/sa501428/GPUTest

sa501428 commented 3 years ago

Also how was this file built? Have you posted this question to the Google Forum? aidenlab.org/forum.html

Lattesnow commented 3 years ago

Have you already tested the installation using something like this: https://github.com/sa501428/GPUTest

This test shows my GPU is not installed or activated

sa501428 commented 3 years ago

So this means there's either an issue with the CUDA installation, your GPU, or something upstream. It's not a Juicer issue. You could try using the CPU version of HiCCUPS while you get the GPU installation fixed. https://github.com/aidenlab/juicer/wiki/CPU-HiCCUPS

Also please use the forum for general questions.

Lattesnow commented 3 years ago

So this means there's either an issue with the CUDA installation, your GPU, or something upstream. It's not a Juicer issue. You could try using the CPU version of HiCCUPS while you get the GPU installation fixed. https://github.com/aidenlab/juicer/wiki/CPU-HiCCUPS

Also please use the forum for general questions.

thanks for the reply I will try the CPU version of Hiccups